Variant report

Variant	rs62527901
Chromosome Location	chr8:125508007-125508008
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:125490493..125493042-chr8:125507947..125510493,3	MCF-7	breast:
2	chr8:125477278..125479238-chr8:125506832..125508856,2	K562	blood:
3	chr8:125504505..125508229-chr8:125551294..125554363,3	MCF-7	breast:
4	chr8:125507542..125509103-chr8:125511076..125513358,2	K562	blood:
5	chr8:125507259..125508866-chr8:125511438..125514054,2	MCF-7	breast:
6	chr8:125505181..125507555-chr8:125507868..125509849,2	K562	blood:
7	chr8:125507846..125511903-chr8:125516482..125518821,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147687	Chromatin interaction
ENSG00000147684	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10956184	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10956185	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10956189	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11556913	0.81[ASN][1000 genomes]
rs12542260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12544211	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12544621	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12545267	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12546906	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12548836	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12550707	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12550827	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4128469	0.81[EUR][1000 genomes]
rs4512366	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4551335	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4602869	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4870898	0.80[EUR][1000 genomes]
rs5004281	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs56942034	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57941917	0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62527880	0.81[EUR][1000 genomes]
rs62527883	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62527884	0.81[EUR][1000 genomes]
rs62527886	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62527908	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62527910	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6987213	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6987358	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7009847	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72713049	0.81[EUR][1000 genomes]
rs7830325	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7834203	0.81[EUR][1000 genomes]
rs7836802	0.82[EUR][1000 genomes]
rs7845008	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531508	chr8:125390194-125587953	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62527901	TRMT12	cis	Whole Blood	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:125488200-125515800	Weak transcription	Lung	lung
2	chr8:125488200-125550400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr8:125489000-125519800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr8:125489000-125531200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr8:125489000-125541200	Weak transcription	Gastric	stomach
6	chr8:125489000-125543400	Weak transcription	Small Intestine	intestine
7	chr8:125493200-125539400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr8:125496000-125512600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr8:125496600-125549600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr8:125496800-125513200	Weak transcription	Brain Angular Gyrus	brain
11	chr8:125496800-125521200	Weak transcription	Fetal Heart	heart
12	chr8:125496800-125547400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr8:125499000-125513200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr8:125499000-125537200	Weak transcription	Esophagus	oesophagus
15	chr8:125499200-125515800	Weak transcription	Right Ventricle	heart
16	chr8:125499800-125512600	Weak transcription	Aorta	Aorta
17	chr8:125499800-125515800	Weak transcription	Colon Smooth Muscle	Colon
18	chr8:125500000-125512600	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr8:125500000-125526200	Weak transcription	Colonic Mucosa	Colon
20	chr8:125500000-125538000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr8:125500000-125538400	Weak transcription	Psoas Muscle	Psoas
22	chr8:125500000-125549600	Weak transcription	Fetal Brain Male	brain
23	chr8:125500200-125512600	Weak transcription	NHDF-Ad	bronchial
24	chr8:125500200-125530800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr8:125500400-125512800	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr8:125500400-125526400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr8:125500600-125513800	Weak transcription	Fetal Kidney	kidney
28	chr8:125501600-125514800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr8:125501600-125514800	Weak transcription	GM12878-XiMat	blood
30	chr8:125501600-125516000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr8:125501600-125524600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr8:125501600-125535000	Weak transcription	Brain Cingulate Gyrus	brain
33	chr8:125501600-125550000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr8:125501800-125514800	Weak transcription	HUVEC	blood vessel
35	chr8:125502000-125513200	Weak transcription	Left Ventricle	heart
36	chr8:125502000-125515800	Weak transcription	HSMMtube	muscle
37	chr8:125502400-125512600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr8:125502400-125514800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr8:125502600-125514000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr8:125503800-125513200	Weak transcription	Duodenum Mucosa	Duodenum
41	chr8:125503800-125513200	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr8:125503800-125514800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr8:125503800-125514800	Weak transcription	Brain Anterior Caudate	brain
44	chr8:125503800-125515800	Weak transcription	Thymus	Thymus
45	chr8:125503800-125518800	Weak transcription	Brain Hippocampus Middle	brain
46	chr8:125504000-125508400	Weak transcription	HSMM	muscle
47	chr8:125504000-125512400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr8:125504000-125512400	Weak transcription	Primary B cells from peripheral blood	blood
49	chr8:125504000-125512400	Weak transcription	Fetal Thymus	thymus
50	chr8:125504000-125512600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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